Tools for Comparative Genomics


How to Cite mVISTA

mVISTA was described in several publications. Please use references relevant to you work. Thank you.

General VISTA references

Frazer KA, Pachter L, Poliakov A, Rubin EM, Dubchak I. VISTA: computational tools for comparative genomics. Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W273-9

Mayor C., Brudno M., Schwartz J. R., Poliakov A., Rubin E. M., Frazer K. A., Pachter L. S. and Dubchak I. (2000) VISTA: Visualizing Global DNA Sequence Alignments of Arbitrary Length. Bioinformatics, 16:1046.

Alignment programs


Bray, N., Dubchak, I. and Pachter, L. (2003) AVID: A Global Alignment Program. Genome Research, 13:97.


Brudno, M., Do, C.B., Cooper, G.M., Kim, M.F., Davydov, E., Green, E.D., Sidow, A., and Batzoglou, S; NISC Comparative Sequencing Program. LAGAN and Multi-LAGAN: Efficient Tools for Large-Scale Multiple Alignment of Genomic DNA, 2003. Genome Research, 13(4): 721-731.


Brudno, M., Malde, S., Poliakov, A., Do, C.B., Couronne, O., Dubchak, I., and Batzoglou, S. Glocal Alignment: Finding Rearrangements During Alignment, 2003. Bioinformatics, 19S1: i54-i62.


Loots, G., Ovcharenko,I., Pachter,L., Dubchak,I., Rubin, E. rVISTA for comparative sequence-based discovery of functional transcription factor binding sites. (2002) Genome. Res. 12:832-839